BIA-ro-crate

A CLI tool to convert between BioImage Archive API objects and JSON objects related to RO-crate, zarr, etc.

Install

poetry env use python3.10
poetry install

BIA Image to zarr v4 metadata

Creates ro-crate-metadata.json for an image following ome zarr v4 structure from an image (use uuid of image)

Example use:

poetry run bia-ro-crate image-crate 42db9fb5-0f2a-4310-b40b-bc358a6e48b9   

Should create a folder 42db9fb5-0f2a-4310-b40b-bc358a6e48b9 with an ro-crate.json inside.

## BIA ingest

Creates json BIA api objects for the objects in an ro-crate json.

Example use:

poetry run bia-ro-crate ingest -c bia_ro_crate/model/example/S-BIAD1494/ro-crate-version

This outputs a single json of all the BIA API objects (path can be change with -o option)